Variant report

Variant	rs28821280
Chromosome Location	chr4:105944654-105944655
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10010512	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10015876	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12710978	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13116642	0.98[EUR][1000 genomes]
rs17035227	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs28763330	0.93[EUR][1000 genomes]
rs28789413	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34463758	1.00[EUR][1000 genomes]
rs34887792	0.94[EUR][1000 genomes]
rs66530760	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6811026	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6823769	0.95[EUR][1000 genomes]
rs6837188	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461609	chr4:105869548-106366209	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv470063	chr4:105869548-106366209	Transcr. at gene 5' and 3' Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv595007	chr4:105869548-106366209	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv830024	chr4:105884350-106037816	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:105943000-105946000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr4:105943400-105944800	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr4:105943800-105945000	Enhancers	HMEC	breast
4	chr4:105943800-105946400	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr4:105944000-105944800	Flanking Active TSS	NHEK	skin
6	chr4:105944400-105944800	Enhancers	Monocytes-CD14+_RO01746	blood
7	chr4:105944400-105945800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr4:105944400-105946200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr4:105944600-105944800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr4:105944600-105945200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr4:105944600-105945600	Weak transcription	Placenta	Placenta
12	chr4:105944600-105949200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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